Ferrocenylethenylsilatranes and a cymantrenylsilatrane

The syntheses, properties and crystal structures of two isomeric ferrocenylethenylsilatranes and 1-(3-methylcymantrenyl)silatrane are reported. The organometallic moieties and the silatrane show little structural influence on each other. The Si---N distances remain in the expected range of 2.13–2.22 Å, asserting the hypervalency of silicon. The electron-donating effect of the silatrane group is transmitted through the C---C double bond to ferrocene, as shown by the redox potentials. The first hyperpolarizability of the ferrocene derivatives was determined by hyper-Rayleigh scattering.     

Crystallographic report: 1‐[4‐(2‐Thienyl)phenyl]germatrane

In the title compound, germanium is penta‐coordinated and adopts a trigonal bipyramidal geometry. The (2‐thienyl)phenyl group and the nitrogen atom each occupy an apical position with a transannular N→Ge bond distances of 2.247(4) and 2.219(4) Å for the two independent molecules. Copyright © 2005 John Wiley & Sons, Ltd.     

An empirical potential for the O-H ⋯ O hydrogen bond: Part 2. Comparison with observed hydrogen bond geometries

The room temperature distribution of O-H ? O hydrogen bond geometries has been predicted by a Monte Carlo calculation, with an empirical potential energy function for the hydrogen bond. The results are compared with a recent survey of hydrogen bonds in carbohydrate crystal structures. The calculated and observed distributions of the O-H ? O angle have mean values of 165.5° and 167.1° respectively. Both the theoretical and experimental results suggest that short O ? H hydrogen bonds tend to be more linear than long O ? H bonds. The distribution of hydrogen bonding within the lone pair plane of the acceptor oxygen atom is predicted to be broader than the distribution perpendicular to this plane, in agreement with the experimental data. The empirical hydrogen bond function, in conjunction with the molecular mechanics program MMI, has also been used to predict the geometries of inter-residue hydrogen bonds in five disaccharides. The O ? H distances and O-H ? O angles are reproduced with r.m.s. deviations of 0.06 Å and 9° respectively.     

The structure of 1-chlorosilatrane: An ab initio molecular orbital and a density functional theory study

The molecular geometries of the 1-chloro-, 1-fluoro-, 1-methyl-, and 1-hydrogenosilatranes were fully optimized by the restricted Hartree-Fock (HF) method supplemented with 3-21G, 3-21G(d), 6-31G(d), and CEP-31G(d) basis sets; by MP2 calculations using 6-31G(d) and CEP-31G(d) basis sets; and by GGA-DFT calculations using 6-31G(d5) basis set with the aim of locating the positions of the local minima on the energy hypersurface. The HF/6-31G(d) calculations predict long (>254 pm) and the MP2/CEP calculations predicted short (∼225 pm) equilibrium Si(SINGLE BOND)N distances. The present GGA-DFT calculations reproduce the available gas phase experimental Si(SINGLE BOND)N distances correctly. The solid phase experimental results predict that the Si(SINGLE BOND)N distance is shorter in 1-chlorosilatrane than in 1-fluorosilatrane. In this respect the HF results show a strong basis set dependence, the MP2/CEP results contradict the experiment, and the GGA-DFT results in electrolytic medium agree with the experiment. The latter calculations predict that 1-chlorosilatrane is more polarizable than 1-fluorosilatrane and also support a general Si(SINGLE BOND)N distance shortening trend for silatranes during the transition from gas phase to polar liquid or solid phase. The calculations predict that the ethoxy links of the silatrane skeleton are flexible. Consequently, it is difficult to measure experimentally the related bond lengths and bond and torsion angles. This is the probable origin of the surprisingly large differences for the experimental structural parameters. On the basis of experimental analogies, ab initio calculations, and density functional theory (DFT) calculations, a gas phase equilibrium (r_e) geometry is predicted for 1-chlorosilatrane. The semiempirical methods predict a so-called exo minimum (at above 310 pm Si(SINGLE BOND)N distance); however, the ab initio and GGA-DFT calculations suggest that this form is nonexistent. The GGA-DFT geometry optima were characterized by frequency analysis. © 1996 by John Wiley & Sons, Inc.     

‘Face-to-Face’-Benzo-anellierte homologe Hypostrophene. Synthesen,Röntgenstrukturanalysen und PE-Spektren

‘Face-to-Face’ Benzo-anellated Homologous Hypostrophenes. Syntheses, X-Ray-Structure Analyses and PE Spectra ‘Face-to-face’ Benzo-anellated homologous hypostrophenes (series M ), of interest as substrates for [6 + 6]-photocycloaddition reactions, have been synthesized. From X-ray structural analyses of 13b and 13c shortest C? C distances of 2.80(2.76)/2.71 Å and interorbital angles (ω) of 129° (128°)/130° between the benzene rings have been determined. The PE spectra are discussed in the context of transannular π,π interactions.     

Crystal structure of 1-[N-2-aminoethyl)-aminopropyl]silatrane

The crystal structure of 1-[N-(2-aminoethyl)aminopropyl]silatrane has been determined by x-ray diffraction at room temperature. The Si←N bond distance (2.165(2) Å) is in the range observed for other 1-X-propylsilatranes (X = CN, OH, SH, Cl and SCN). The structure is partially disordered: the silatrane moiety displays a disorder that is typical for silatranes and the aminoethyl group terminating the planar chain linked to silicon is rotationally disordered.     

Ab initio molecular orbital study of 1-fluorosilatrane

The molecular geometry of 1-fluorosilatrane was optimized fully by restricted Hartree–Fock (HF) calculations using the 3-21G, 3-21G(d) and 6-31G(d) basis sets, with the aim of locating the positions of the local minima on the energy hypersurface. The optimized geometries were compared with available experimental (X-ray and ED) and semiempirical data. The ab initio calculations using polarized basis sets are in good agreement with those of previously reported semiempirical calculations, giving a slightly longer equilibrium Si? N distance (～ 256 pm) in the case of the endo minimum. However, the exo minimum predicted by the semiempirical methods is not supported. There was no experimental evidence for the existence of this exo minimum, and the present ab initio calculations suggest that it is highly unstable. There is considerable disagreement among the experimental results in the C? N and C? C bond lengths in various silatranes, their differences being as large as 13 pm. The present calculations predict that these differences may appear because the silatrane skeleton is flexible with low-energy, large-amplitude internal motions which introduce considerable uncertainties into the position of ring carbon atoms. © 1994 by John Wiley & Sons, Inc.     

A density functional study of chemical reactions

Density functional theory (DFT ) was used to study reactions involving small molecules. Relative energies of isomers and transition structures of diazene, formaldehyde, and methylenimine were determined using various DFT functionals and results were compared with MP 2 and MP 4 calculations. DFT reaction barriers were found to be consistently lower. For some reactions, such as OH + H₂→ H₂O + H, gradient-corrected functionals predict very low or nonexistent barriers. The hybrid Hartree–Fock–DFT adiabatic connection method (ACM ) often provides much better results in such cases. The performance of several density functionals, including ACM , was tested in calculations on over 100 atomization, hydrogenation, bond dissociation, and isodesmic reactions. The ACM functional provides consistently better geometries and reaction energetics than does any other functional studied. In cases where both HF and gradient-corrected DFT methods underestimate bond distances, the ACM geometries may be inferior to those predicted by gradient-corrected DFT methods. © 1995 John Wiley & Sons, Inc.     

Geometry prediction of bridged zirconocene dichlorides by quantum chemical methods

The ab initio Hartree–Fock theory has been demonstrated to give accurate geometry predictions for bridged zirconocene dichlorides. Equilibrium geometries of crystallographically characterized bridged zirconocene dichlorides were optimized by Hartree–Fock, MP2, BLYP, and B3LYP methods, with basis sets ranging from 3‐21G* to 6‐311G**. Selected geometrical parameters were compared with experimental crystal structures. The least expensive HF/3‐21G* method proved to be notably accurate. The accuracy of HF/3‐21G* was verified by a comprehensive data set of 62 bridged zirconocene dichlorides. Furthermore, experimental corrections were applied to the optimized geometry parameters to eliminate systematic deviations. Corrections resulted in considerably improved accuracy for systematically overestimated metal–ligand distances, with maximum deviation falling from 0.081 to 0.039 Å, and absolute average deviations from 0.048 to 0.012 Å. Ligand–metal–ligand angles were predicted accurately with absolute average deviations of 0.7–1.3°. Zirconium–chlorine distances and chlorine–zirconium–chlorine angles are relatively constant in the studied molecules. Zirconium–cyclopentadienyl distances can be influenced mainly by modifying the ligand structure, whereas cyclopentadienyl–zirconium– cyclopentadienyl angles and cyclopentadienyl–cyclopentadienyl plane angles can be controlled by bridge modifications. The HF/3‐21G* method can be applied for the estimation of steric effects in zirconocene catalyzed polymerization reactions, therefore being suitable for the construction of structure–polymerization property correlations. © 2000 John Wiley & Sons, Inc. J Comput Chem 22: 51–64, 2001     

Synthesis, structure, and bonding properties of 5-carbaphosphatranes: a new class of main group atrane

1-Hydro-5-carbaphosphatrane (1) and 1-methyl-5-carbaphosphatrane (2), the first 5-carbon analogues of phosphatranes, were synthesized by a demethylation reaction of cyclic phosphinate 3. X-ray analysis revealed that 1 has a typical trigonal bipyramidal structure with hydrogen and carbon atoms at the apical position and three oxygen atoms at the equatorial positions, indicating that 1 is a phosphorane in the perfectly "anti-apicophilic" arrangement. Apical P-C and P-H bond lengths were 1.921(2) and 1.38(2) A, respectively. The (1)J(PH) value of 1 and the (1)J(PC)(P-CH(3)) value of 2 were 852 and 215 Hz, respectively, which are extraordinarily large for the apical coupling constants of phosphoranes, but close to those of the reported phosphatranes with a 5-nitrogen atom. IR and Raman spectra are also reported. Force constant calculations indicate the transannular bond in carbaphosphatrane is 3 times stronger than in silatrane, due to its covalent character.     

The effect of the C-methyl substitution on the molecular geometry of the silatrane skeleton: The crystal structures of 1-(4′-tolyl)-silatrane and 1-(4′-tolyl)-3,7,10-trimethylsilatrane

Unsubstituted (1) and 3,7,10-trimethyl substituted (2) 1-(4′-tolyl)-silatranes were synthesized. ¹H, ¹³C, ¹⁵N and ²⁹Si NMR spectra were recorded and assigned. The conformation of the 2 stereoisomers in solution were characterized by the NMR spectra. 1 is monoclinic, P2₁/c, with a = 13.454(2), b = 13.888(2), c = 14.345(2) Å, β = 99.10(2)°. The major stereoisomer fraction of 2 is orthorhombic, Pbca, with a = 12.168(2), b = 13.754(4), c = 20.260(3) Å. The structures were solved by direct methods and were refined by least squares to R values of 0.039 and 0.066 for 3523 and 2158 reflexions. The N→Si distances are 1: 2.169(2) (mean) and 2: 2.236(3) Å. The solid state conformation of the 2 major stereoisomer fraction is different from that in solution and this is the first example of a silatrane crystal structure where the silatrane moiety lacks C₃ symmetry.     

Über Arsen-haltige Heterocyclen. II. Molekül- und Kristallstruktur von 5-Chlor-1-oxa-4,6-dithia-5-arsaocan

On Heterocyclic Systems Containing Arsenic. II¹). Molecular and Crystal Structure of 5-Chloro-1-oxa-4, 6-dithia-5-arsaocane The crystal structure of the title compound has been determined from single crystal X-ray data and refined to a conventional R of 0.048. The eight-membered ring has the boat-chair conformation. PITZER and BAEYER strain are smaller than in cyclooctane and the transannular 1, 5-H…?H repulsion in cyclooctane is replaced by a stabilizing 1, 5-As…?O attraction. The coordination of the As-atom is ψ trigonal-bipyramidal with axial distances As? Cl 2.27 Å, As? O 2.45 Å and equatorial distances As? S 2.25 Å. The structure consists of 12-coordinated molecules. The crystal data of the analogous Sb compound 5-Chloro-1-oxa-4, 6-dithia-5-stibaocane are given.     

Increasing the efficiency of the transannular diels-alder strategy via stille macrocyclizations

To increase the potential and flexibility of the transannular Diels-Alder strategy to build tricycles and tetracycles, the synthesis of macrocyclic trienes of defined geometries has been approached via Stille macrocyclization, giving very high yield and purity of the desired macrocycles or tricycles.     

Quantum mechanical modeling of a transannular interaction in a bicyclic amidinium ion

A transannular donor-acceptor interaction in a bicyclic azaamidinium salt was modeled by quantum mechanical calculations using a supermolecule complex consisting of a formamidinium cation and an ammonia molecule. Molecular properties are reported at various geometries. These results are compared with the results of similar calculations on the bicyclic cation itself. The model calculations and the bicyclic cation calculations are in good agreement, but both fail to reproduce the experimentally known structure. Results from ab initio calculations on the model system are discussed, as are results from calculations which included iodide as counterion.     

Energetics and structure of the hydrated gaseous halide anions

Energetics and geometries for the hydrated gaseous halide anions have been computed from a simple model in which the molecular dipole of water was composed of two parts, one due to a lone pair on oxygen (60%) and the rest to formal charges on the nuclei. The calculations were made for both the symmetric and nonsymmetric structures. A variety of structures were used to compute potential energies and distances with up to six water molecules. The total energy consisted of a sum of electrostatic, polarization, dispersion, and repulsion terms. Various sets of repulsive potential parameters, ranging from those determined from molecular beam experiments to those determined using experimental ion–water distances or energies, have been employed to compute repulsive interaction energies. It was found that the range parameters play a significant role in deciding the magnitudes of the distances and energies, as the latter are most sensitive to them. It was also shown that with a simple correlation scheme the consistency of the experimental energies and distances can be tested separately without using repulsive potential parameters from other sources. It also suggests that a range of parameters can be used to compute repulsion energies. Despite the fact that the model is greatly simplified, the agreement of both the predicted ion-oxygen distances and energies with both experiment and other calculations is excellent. A detailed analysis of our calculation suggests that the negative ion clusters with one to three water molecules contain symmetric orientation of water molecules, while those with more than three may contain asymmetric orientations of water molecules or a mixture of both. From the log–log plots of hydration energies versus (R + radius of water molecule), we have proposed empirical expressions of the type ΔE_n?1,n = 10·0^x (R + 1.38)^?y with both Pauling's and Ladd's radii for univalent ions with which stepwise hydration energies of the latter can be predicted if we know thier radii. The values predicted for the alkali cations are in excellent agreement with the experimental and theoretical values, indicating the consistency of the simple model.     

Crystal and molecular structure of 1-(iodmethyl)- and 1-(iodpropyl)silatranes

The crystal and molecular structures of 1-(iodmethyl)silatrane and 1-(iodpropyl)silatrane are determined by X-ray diffraction. The effect of the iodine heteroatom upon silatrane moieties of the molecules through oneand three-carbon chains is studied based on the geometric characteristics of the molecules and the analysis of their packings.     

Assessment of the suitability of Monte Carlo simulation for activity measurements of extended sources

Monte Carlo simulations can be a powerful tool in calibrating high-resolution gamma-ray spectrometry based on high pure germanium (HPGe) detectors. The purpose of this work is to examine the applicability of Monte Carlo simulations for the computation of the efficiency transfer in various measurement geometries on the basis of the detected efficiency for point source geometry. For this, GEANT4 code was applied for the computation of the detection efficiency for incident gamma energy of radionuclide placed at different distances from HPGe detector from 50 to 2,000 keV in addition for volume sources of different compositions and densities. The experimental efficiency curves were compared with the prediction of the GEANT4 code. Efficiency is computed at discrete values of point and volume sources in different distances to derive new efficiencies values for other distances.     

Ab initio studies of structural features not easily amenable to experiment: Part 15. The influence of solvation on molecular structure in some formic acid and carbonic acid hydrates

The completely relaxed ab initio geometries (4—21G) of a trihydrate of carbonic acid and of the monohydrates of cis and trans formic acid are compared with the corresponding unhydrated structures. The maximum structural changes caused by hydration in the free acid structures are of the order of magnitude of 0.03 Å and 3° for bond distances and bond angles, respectively. The corresponding changes in free and complexed water are 0.005 Å and 5°, respectively. The results are significant for the general problem of the transferability of gas phase molecular structures to molecules in solution and for estimates of the uncertainties in theoretical hydration energy surfaces which are generated by using fixed, monomer geometries for water and solvate molecules. Compared with the free geometries, the sum total of the structural changes in some of the systems studied corresponds to energies of several kcal mol^?1.     

Bonding in and spectroscopic properties of gaseous triatomic molecules: Part I. Alkaline-earth metal dihalides

Molecular and atomic properties are correlated among the alkaline-earth dihalides. Unknown molecular properties are derived and molecular geometries are predicted from the use of these correlations. Empirical relations which correlate force constants, bond angles, electronegativities, ionic polarizabilities and bond distances are presented.